8JIK

Alanine decarboxylase

• PDB DOI: https://doi.org/10.2210/pdb8JIK/pdb

• Classification: LYASE
• Organism(s): Camellia sinensis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-05-26 Released: 2024-05-29 
• Deposition Author(s): Gong, W., Wang, H.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.223 
• R-Value Work: 0.172 
• R-Value Observed: 0.174 

Starting Model: experimental

Literature

Crystal structure of alanine decarboxylase

Gong, W., Wang, H.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 48.12 kDa 
• Atom Count: 3,347 
• Modelled Residue Count: 410 
• Deposited Residue Count: 421 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Serine decarboxylase	A	421	Camellia sinensis	Mutation(s): 0  Gene Names: TEA_005062
UniProt
Find proteins for A0A4S4ESS1 (Camellia sinensis var. sinensis) Explore A0A4S4ESS1  Go to UniProtKB:  A0A4S4ESS1

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PLP	B [auth A]	PYRIDOXAL-5'-PHOSPHATE C8 H10 N O6 P NGVDGCNFYWLIFO-UHFFFAOYSA-N
ZN	D [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
NEH	E [auth A]	ETHANAMINE C2 H7 N QUSNBJAOOMFDIB-UHFFFAOYSA-N
CA	C [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.223 
• R-Value Work: 0.172 
• R-Value Observed: 0.174 
• Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 163.996	α = 90
b = 163.996	β = 90
c = 50.209	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-3000	data scaling
HKL-3000	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-05-29 
Deposition Author(s): Gong, W., Wang, H.

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Funding Organization	Location	Grant Number
Other government		--

Revision History  

• Version 1.0: 2024-05-29
  Type: Initial release